Vienna RNA Package

• Introduction
• Folding Routines
  • Minimum free Energy Folding
  • Partition Function Folding
  • Inverse Folding
  • Global Variables for the Folding Routines
  • Energy Parameter Files
• Parsing and Comparing of Structures
  • Representations of Secondary Structures
  • Parsing and Coarse Graining of Structures
  • Distance Measures
    • Functions for Tree Edit Distances
    • Functions for String Alignment
    • Functions for Comparison of Base Pair Probabilities
• Utilities
• A Small Example Program
• References
• Function Index
• Variable Index

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